Translatome profiling: methods for genome-scale analysis of mRNA translation (Q38266157)

1 September 2017

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title

Translatome profiling: methods for genome-scale analysis of mRNA translation (English)

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1 September 2017

2

André P Gerber

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author name string

Helen A King

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1

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1 September 2017

6 November 2014

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Briefings in functional genomics

1 September 2017

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1 September 2017

15

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1 September 2017

22-31

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1 September 2017

1

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Integrated genomic and proteomic analyses of gene expression in Mammalian cells

1 September 2017

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Protein expression regulation under oxidative stress

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Global quantification of mammalian gene expression control

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Stress-dependent coordination of transcriptome and translatome in yeast

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Translational control of immune responses: from transcripts to translatomes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Translational control in cancer etiology

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Sustained translational repression by eIF2α-P mediates prion neurodegeneration

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

The structure and function of the eukaryotic ribosome

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Structures of the human and Drosophila 80S ribosome

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

The mechanism of eukaryotic translation initiation and principles of its regulation

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

The role of IRES trans-acting factors in regulating translation initiation

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Regulation of translation initiation in eukaryotes: mechanisms and biological targets

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Regulation of mRNA translation and stability by microRNAs

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

A perspective on mammalian upstream open reading frame function

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Mechanisms and implications of programmed translational frameshifting

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Polysome analysis and RNA purification from sucrose gradients

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Polysome profiling shows extensive posttranscriptional regulation during human adipocyte stem cell differentiation into adipocytes.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Remodeling of Ago2-mRNA interactions upon cellular stress reflects miRNA complementarity and correlates with altered translation rates

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Systematic identification and functional screens of uncharacterized proteins associated with eukaryotic ribosomal complexes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Genome-wide analysis of mRNA translation profiles in Saccharomyces cerevisiae

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

A network of multiple regulatory layers shapes gene expression in fission yeast.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Bacterial translational regulations: high diversity between all mRNAs and major role in gene expression

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Global and specific translational regulation in the genomic response of Saccharomyces cerevisiae to a rapid transfer from a fermentable to a nonfermentable carbon source

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Polypyrimidine tract binding protein regulates IRES-mediated gene expression during apoptosis

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Global mRNA stabilization preferentially linked to translational repression during the endoplasmic reticulum stress response

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Identification of mRNAs that continue to associate with polysomes during hypoxia

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Identification of eukaryotic mRNAs that are translated at reduced cap binding complex eIF4F concentrations using a cDNA microarray

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Translational regulation of specific mRNAs controls feedback inhibition and survival during macrophage activation

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Translational reprogramming following UVB irradiation is mediated by DNA-PKcs and allows selective recruitment to the polysomes of mRNAs encoding DNA repair enzymes.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

IRES-dependent translation of egr2 is induced under inflammatory conditions

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Distinct perturbation of the translatome by the antidiabetic drug metformin

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Identifying eIF4E-binding protein translationally-controlled transcripts reveals links to mRNAs bound by specific PUF proteins

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Reduced expression of ribosomal proteins relieves microRNA-mediated repression.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Differential association of microRNAs with polysomes reflects distinct strengths of interactions with their mRNA targets

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

A role for eukaryotic initiation factor 4B overexpression in the pathogenesis of diffuse large B-cell lymphoma.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Integrative "omics"-approach discovers dynamic and regulatory features of bacterial stress responses

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Analysis of genome-wide changes in the translatome of Arabidopsis seedlings subjected to heat stress

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Global analyses of mRNA translational control during early Drosophila embryogenesis

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Drosophila miR2 induces pseudo-polysomes and inhibits translation initiation.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Genome-wide analysis in vivo of translation with nucleotide resolution using ribosome profiling

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

The ribosome profiling strategy for monitoring translation in vivo by deep sequencing of ribosome-protected mRNA fragments

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Ribosome profiling: a Hi-Def monitor for protein synthesis at the genome-wide scale

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Genome-wide ribosome profiling reveals complex translational regulation in response to oxidative stress

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Widespread regulation of translation by elongation pausing in heat shock

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Cotranslational response to proteotoxic stress by elongation pausing of ribosomes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

A unifying model for mTORC1-mediated regulation of mRNA translation.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

The translational landscape of mTOR signalling steers cancer initiation and metastasis

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

High-resolution view of the yeast meiotic program revealed by ribosome profiling

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

The translational landscape of the mammalian cell cycle

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Mammalian microRNAs predominantly act to decrease target mRNA levels

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Ribosome profiling shows that miR-430 reduces translation before causing mRNA decay in zebrafish

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

LIN28A is a suppressor of ER-associated translation in embryonic stem cells

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Global mapping of translation initiation sites in mammalian cells at single-nucleotide resolution

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Genome-wide search for novel human uORFs and N-terminal protein extensions using ribosomal footprinting

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

A bicistronic MAVS transcript highlights a class of truncated variants in antiviral immunity

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Composite effects of gene determinants on the translation speed and density of ribosomes.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Determinants of translation elongation speed and ribosomal profiling biases in mouse embryonic stem cells

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Ribosome profiling of mouse embryonic stem cells reveals the complexity and dynamics of mammalian proteomes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Monitoring cotranslational protein folding in mammalian cells at codon resolution

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Translation inhibitors cause abnormalities in ribosome profiling experiments

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

An evolutionarily conserved mechanism for controlling the efficiency of protein translation

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Structural basis for the inhibition of the eukaryotic ribosome

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Decoding human cytomegalovirus

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

KSHV 2.0: a comprehensive annotation of the Kaposi's sarcoma-associated herpesvirus genome using next-generation sequencing reveals novel genomic and functional features

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Quantifying absolute protein synthesis rates reveals principles underlying allocation of cellular resources

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Conserved translatome remodeling in nematode species executing a shared developmental transition

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Identification of small ORFs in vertebrates using ribosome footprinting and evolutionary conservation.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Cell type-specific mRNA purification by translating ribosome affinity purification (TRAP).

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Cell-type specific analysis of translating RNAs in developing flowers reveals new levels of control

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

One-step affinity purification of the yeast ribosome and its associated proteins and mRNAs

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Affinity purification of ribosomes to access the translatome.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Revealing stable processing products from ribosome-associated small RNAs by deep-sequencing data analysis.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Immunopurification of polyribosomal complexes of Arabidopsis for global analysis of gene expression

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Profiling translatomes of discrete cell populations resolves altered cellular priorities during hypoxia in Arabidopsis.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

A translational profiling approach for the molecular characterization of CNS cell types

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Cell-type-specific isolation of ribosome-associated mRNA from complex tissues

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Application of a translational profiling approach for the comparative analysis of CNS cell types

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Interrogating translational efficiency and lineage-specific transcriptomes using ribosome affinity purification

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Cell-specific translational profiling in acute kidney injury

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Evaluation of TRAP-sequencing technology with a versatile conditional mouse model.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

In vivo radiation response of proneural glioma characterized by protective p53 transcriptional program and proneural-mesenchymal shift.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Molecular profiling of neurons based on connectivity

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Digital expression profiling of the compartmentalized translatome of Purkinje neurons

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

A versatile method for cell-specific profiling of translated mRNAs in Drosophila

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Translational profiling of cardiomyocytes identifies an early Jak1/Stat3 injury response required for zebrafish heart regeneration

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Heat shock modulates neutrophil motility in zebrafish

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Local translation of extranuclear lamin B promotes axon maintenance

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Cell type-specific translational profiling in the Xenopus laevis retina

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Translational dynamics revealed by genome-wide profiling of ribosome footprints in Arabidopsis

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

Hypoxia-inducible factor 1alpha (HIF-1alpha) protein is rapidly degraded by the ubiquitin-proteasome system under normoxic conditions. Its stabilization by hypoxia depends on redox-induced changes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBFGP%2FELU045

21 January 2018

Identifiers

DOI

10.1093/BFGP/ELU045

1 reference

1 September 2017

1 reference

PubMed ID

25380596